YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|41582654, gi\|...
Organism:	Lactobacillus johnsonii NCC 533
Length:	708 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for gi|41582654, gi|....

Description	E-value	Query Range	Subject Range
gi\|238853549, gi... - gi\|238853549\|ref\|ZP_04643921.1\| ATP-dependent metallopeptidase HflB [Lactobacillus gasseri 202-4], g... gi\|116094532, gi... - gi\|116628950\|ref\|YP_814122.1\| ATP-dependent Zn protease [Lactobacillus gasseri ATCC 33323], gi\|11609... gi\|226820088 - gi\|226820088\|ref\|ZP_03809207.1\| ATP-dependent Zn protease [Lactobacillus gasseri MV-22]	543.0	[0..1]	[707..1]
gi\|37528354, gi\|... - gi\|37528354\|ref\|NP_931699.1\| ATP-dependent metalloprotease [Photorhabdus luminescens subsp. laumondi...	500.0	[0..5]	[655..1]
gi\|205357195, gi... - gi\|205357195\|ref\|ZP_02345811.2\| ATP-dependent metallopeptidase HflB [Salmonella enterica subsp. ente... gi\|197248059, gi... - gi\|197248059\|ref\|YP_002148220.1\| ATP-dependent metallopeptidase HflB [Salmonella enterica subsp. ent... gi\|195873641, gi... - gi\|195873641\|ref\|ZP_02697399.2\| ATP-dependent metallopeptidase HflB [Salmonella enterica subsp. ente... gi\|194471603, gi... - gi\|194471603\|ref\|ZP_03077587.1\| ATP-dependent metallopeptidase HflB [Salmonella enterica subsp. ente... gi\|194447870, gi... - gi\|194447870\|ref\|YP_002047324.1\| ATP-dependent metalloprotease [Salmonella enterica subsp. enterica ... gi\|194442507, gi... - gi\|194442507\|ref\|YP_002042552.1\| ATP-dependent metallopeptidase HflB [Salmonella enterica subsp. ent... gi\|205348591, gi... - gi\|205360607\|ref\|ZP_02684667.2\| ATP-dependent metallopeptidase HflB [Salmonella enterica subsp. ente... gi\|205343557, gi... - gi\|205359745\|ref\|ZP_02831638.2\| ATP-dependent metallopeptidase HflB [Salmonella enterica subsp. ente... gi\|205359196, gi... - gi\|205359196\|ref\|ZP_02668061.2\| ATP-dependent metallopeptidase HflB [Salmonella enterica subsp. ente... gi\|62181804, gi\|... - gi\|62181804\|ref\|YP_218221.1\| ATP-dependent metalloprotease [Salmonella enterica subsp. enterica sero... gi\|205333758, gi... - gi\|205358490\|ref\|ZP_02656962.2\| ATP-dependent metallopeptidase HflB [Salmonella enterica subsp. ente...	500.0	[0..5]	[674..1]
FTSH_SALTI - Cell division protease ftsH OS=Salmonella typhi GN=hflB PE=3 SV=1 FTSH_SALTY - Cell division protease ftsH OS=Salmonella typhimurium GN=hflB PE=3 SV=1 gi\|214000933 - gi\|214000933\|ref\|ZP_03411668.1\| ATP-dependent metalloprotease [Salmonella enterica subsp. enterica s... gi\|224585091, gi... - gi\|224585091\|ref\|YP_002638890.1\| cell division protein [Salmonella enterica subsp. enterica serovar ... gi\|56129482, gi\|... - gi\|56415225\|ref\|YP_152300.1\| ATP-dependent metalloprotease [Salmonella enterica subsp. enterica sero... gi\|238910089 - gi\|238910089\|ref\|ZP_04653926.1\| ATP-dependent metalloprotease [Salmonella enterica subsp. enterica s... gi\|207858544, gi... - gi\|207858544\|ref\|YP_002245195.1\| ATP-dependent metalloprotease [Salmonella enterica subsp. enterica ... gi\|213052988 - gi\|213052988\|ref\|ZP_03345866.1\| ATP-dependent metalloprotease [Salmonella enterica subsp. enterica s... lcl\|NC_016856.1_... - [gene=hflB] [protein=ATP-dependent metalloprotease] [protein_id=YP_005239474.1] [location=complement... gi\|213425426 - gi\|213425426\|ref\|ZP_03358176.1\| ATP-dependent metalloprotease [Salmonella enterica subsp. enterica s... gi\|213852786 - gi\|213852786\|ref\|ZP_03382318.1\| ATP-dependent metalloprotease [Salmonella enterica subsp. enterica s... gi\|29143547, gi\|... - gi\|29143547\|ref\|NP_806889.1\| ATP-dependent metalloprotease [Salmonella enterica subsp. enterica sero... gi\|160867488, gi... - gi\|161506141\|ref\|YP_001573253.1\| ATP-dependent metalloprotease [Salmonella enterica subsp. arizonae ... FTSH_SALTY - ATP-dependent zinc metalloprotease FtsH OS=Salmonella typhimurium GN=ftsH PE=3 SV=1 gi\|16762058 - gi\|16762058\|ref\|NP_457675.1\| ATP-dependent metalloprotease [Salmonella enterica subsp. enterica sero... gi\|161616303, gi... - gi\|161616303\|ref\|YP_001590268.1\| ATP-dependent metalloprotease [Salmonella enterica subsp. enterica ... FTSH_SALTI - ATP-dependent zinc metalloprotease FtsH OS=Salmonella typhi GN=ftsH PE=3 SV=1 gi\|197364155, gi... - gi\|197364155\|ref\|YP_002143792.1\| ATP-dependent metalloprotease [Salmonella enterica subsp. enterica ... FTSH_SALTY - ATP-dependent zinc metalloprotease FtsH OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 7007... gi\|205273978, gi... - gi\|205354197\|ref\|YP_002227998.1\| ATP-dependent metalloprotease [Salmonella enterica subsp. enterica ...	498.0	[0..8]	[674..1]
gi\|746401 - gi\|746401\|gb\|AAA97508.1\| ATP-binding protein gi\|188487047, gi... - gi\|188491848\|ref\|ZP_02999118.1\| ATP-dependent metallopeptidase HflB [Escherichia coli 53638], gi\|188... gi\|157068341, gi... - gi\|157162661\|ref\|YP_001459979.1\| ATP-dependent metalloprotease [Escherichia coli HS], gi\|157068341\|g... gi\|157080734, gi... - gi\|157158704\|ref\|YP_001464653.1\| ATP-dependent metalloprotease [Escherichia coli E24377A], gi\|157080... gi\|226839967, gi... - gi\|254038343\|ref\|ZP_04872401.1\| ATP-dependent metalloprotease [Escherichia sp. 1_1_43], gi\|226839967... gi\|253771988, gi... - gi\|253771988\|ref\|YP_003034819.1\| ATP-dependent metalloprotease FtsH [Escherichia coli BL21(DE3)], gi... gi\|237706070, gi... - gi\|237706070\|ref\|ZP_04536551.1\| ATP-dependent metalloprotease [Escherichia sp. 3_2_53FAA], gi\|226899... gi\|194411725, gi... - gi\|194430224\|ref\|ZP_03062722.1\| ATP-dependent metallopeptidase HflB [Escherichia coli B171], gi\|1944... tr\|A0A0G3HSQ2\|A0... - ATP-dependent zinc metalloprotease FtsH OS=Escherichia coli (strain K12) GN=ftsH PE=3 SV=1 gi\|191168060, gi... - gi\|191168060\|ref\|ZP_03029860.1\| ATP-dependent metallopeptidase HflB [Escherichia coli B7A], gi\|19090...	496.0	[0..5]	[674..1]
gi\|218555748, gi... - gi\|218555748\|ref\|YP_002388661.1\| ATP-dependent metalloprotease [Escherichia coli IAI1], gi\|218362516... gi\|218358002, gi... - gi\|218550461\|ref\|YP_002384252.1\| ATP-dependent metalloprotease [Escherichia fergusonii ATCC 35469], ... gi\|218429032, gi... - gi\|218691468\|ref\|YP_002399680.1\| ATP-dependent metalloprotease [Escherichia coli ED1a], gi\|218429032... gi\|218367017, gi... - gi\|218560248\|ref\|YP_002393161.1\| ATP-dependent metalloprotease [Escherichia coli S88], gi\|218367017\|... gi\|218701947, gi... - gi\|218701947\|ref\|YP_002409576.1\| ATP-dependent metalloprotease [Escherichia coli IAI39], gi\|21837193... gi\|218696883, gi... - gi\|218696883\|ref\|YP_002404550.1\| ATP-dependent metalloprotease [Escherichia coli 55989], gi\|21835361... gi\|218706798, gi... - gi\|218706798\|ref\|YP_002414317.1\| ATP-dependent metalloprotease [Escherichia coli UMN026], gi\|2184338... FTSH_ECOLI - Cell division protease ftsH (EC 3.4.24.-) - Escherichia coli EG11506 - protease, ATP-dependent zinc-metallo / ATP-dependent membrane protease, complexed with HflCK; regula... FTSH_SHIFL - ATP-dependent zinc metalloprotease FtsH OS=Shigella flexneri GN=ftsH PE=3 SV=1 gi\|24053649, gi\|... - gi\|24114467\|ref\|NP_708977.1\| ATP-dependent metalloprotease [Shigella flexneri 2a str. 301], gi\|24053... gi\|30042775, gi\|... - gi\|30064516\|ref\|NP_838687.1\| ATP-dependent metalloprotease [Shigella flexneri 2a str. 2457T], gi\|300... EG11506 - protease, ATP-dependent zinc-metallo / ATP-dependent membrane protease, complexed with HflCK; regula... gi\|227887899, gi... - gi\|227887899\|ref\|ZP_04005704.1\| M41 family endopeptidase FtsH [Escherichia coli 83972], gi\|227835295... gi\|238863291, gi... - gi\|238902280\|ref\|YP_002928076.1\| protease, ATP-dependent zinc-metallo [Escherichia coli BW2952], gi\|... gi\|251786448, gi... - gi\|251786448\|ref\|YP_003000752.1\| hypothetical protein B21_02994 [Escherichia coli BL21], gi\|24237872... gi\|253975021, gi... - gi\|254163120\|ref\|YP_003046228.1\| protease, ATP-dependent zinc-metallo [Escherichia coli B str. REL60... gi\|253979177, gi... - gi\|254289870\|ref\|YP_003055618.1\| protease, ATP-dependent zinc-metallo [Escherichia coli BL21(DE3)], ... gi\|169890548, gi... - gi\|170082713\|ref\|YP_001732033.1\| subunit of integral membrane ATP-dependent zinc metallopeptidase [E... gi\|169753500, gi... - gi\|170018572\|ref\|YP_001723526.1\| ATP-dependent metalloprotease [Escherichia coli ATCC 8739], gi\|1697... gi\|215266566, gi... - gi\|215488494\|ref\|YP_002330925.1\| ATP-dependent metalloprotease [Escherichia coli O127:H6 str. E2348/... gi\|209920653, gi... - gi\|209920653\|ref\|YP_002294737.1\| ATP-dependent metalloprotease [Escherichia coli SE11], gi\|209913912... gi\|75197127 - gi\|75197127\|ref\|ZP_00707197.1\| COG0465: ATP-dependent Zn proteases [Escherichia coli HS] gi\|75208502 - gi\|75208502\|ref\|ZP_00708822.1\| COG0465: ATP-dependent Zn proteases [Escherichia coli B171] gi\|75187984 - gi\|75187984\|ref\|ZP_00701251.1\| COG0465: ATP-dependent Zn proteases [Escherichia coli E24377A] gi\|146028, gi\|89... - gi\|89109941\|ref\|AP_003721.1\| protease, ATP-dependent zinc-metallo [Escherichia coli str. K-12 substr... gi\|91074173, gi\|... - gi\|91212599\|ref\|YP_542585.1\| ATP-dependent metalloprotease [Escherichia coli UTI89], gi\|91074173\|gb\|... gi\|117625472, gi... - gi\|117625472\|ref\|YP_858795.1\| ATP-dependent metalloprotease [Escherichia coli APEC O1], gi\|115514596... gi\|110345010, gi... - gi\|110643418\|ref\|YP_671148.1\| ATP-dependent metalloprotease [Escherichia coli 536], gi\|110345010\|gb\|... gi\|75228765 - gi\|75228765\|ref\|ZP_00715374.1\| COG0465: ATP-dependent Zn proteases [Escherichia coli B7A] gi\|110616592, gi... - gi\|110807044\|ref\|YP_690564.1\| ATP-dependent metalloprotease [Shigella flexneri 5 str. 8401], gi\|1106... gi\|74313715, gi\|... - gi\|74313715\|ref\|YP_312134.1\| ATP-dependent metalloprotease [Shigella sonnei Ss046], gi\|73857192\|gb\|A...	494.0	[0..8]	[674..1]
gi\|82778492, gi\|... - gi\|82778492\|ref\|YP_404841.1\| ATP-dependent metalloprotease [Shigella dysenteriae Sd197], gi\|81242640...	494.0	[0..8]	[674..1]
gi\|81246995, gi\|... - gi\|82545584\|ref\|YP_409531.1\| ATP-dependent metalloprotease [Shigella boydii Sb227], gi\|81246995\|gb\|A...	494.0	[0..8]	[674..1]
gi\|22124596, gi\|... - gi\|22124596\|ref\|NP_668019.1\| ATP-dependent metalloprotease [Yersinia pestis KIM], gi\|21957399\|gb\|AAM... gi\|165937451, gi... - gi\|165937451\|ref\|ZP_02226014.1\| ATP-dependent metallopeptidase HflB [Yersinia pestis biovar Oriental... gi\|45435292, gi\|... - gi\|45440435\|ref\|NP_991974.1\| ATP-dependent metalloprotease [Yersinia pestis biovar Microtus str. 910... gi\|165989729, gi... - gi\|166011345\|ref\|ZP_02232243.1\| ATP-dependent metallopeptidase HflB [Yersinia pestis biovar Antiqua ... gi\|165919868, gi... - gi\|165928181\|ref\|ZP_02224013.1\| ATP-dependent metallopeptidase HflB [Yersinia pestis biovar Oriental... gi\|170025951, gi... - gi\|170025951\|ref\|YP_001722456.1\| ATP-dependent metalloprotease [Yersinia pseudotuberculosis YPIII], ... gi\|167420745, gi... - gi\|167420745\|ref\|ZP_02312498.1\| ATP-dependent metallopeptidase HflB [Yersinia pestis biovar Oriental... gi\|167057456, gi... - gi\|167423286\|ref\|ZP_02315039.1\| ATP-dependent metallopeptidase HflB [Yersinia pestis biovar Mediaeva... gi\|166214009, gi... - gi\|166214009\|ref\|ZP_02240044.1\| ATP-dependent metallopeptidase HflB [Yersinia pestis biovar Antiqua ... gi\|167049379, gi... - gi\|167401354\|ref\|ZP_02306854.1\| ATP-dependent metallopeptidase HflB [Yersinia pestis biovar Antiqua ...	494.0	[0..5]	[674..1]

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Predicted Domain #1

Region A:
Residues: [1-185]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKNRRNRLLS NGLFYIIVFV ILLAGINWAV GGSGSNGSTE NIRYSQLVKD LKAGKVKSIN  60
   61 VQPSNGVYTV TGSYKKAQKS NNQNNNGFGL IPSSQSSNEV TRFSTTMLQN DSMVKTISDL 120
  121 AQKSGASISG QGESQSGTWI STIVMLVPTL IFIVMLWMMM NQGGQGRGGG MMNFGKSHVK 180
  181 PQDPS

[Run NCBI BLAST on this sequence.]

Detection Method:	Pfam
Confidence:	8.79588
Match:	PF06480.6
Description:	No description for PF06480.6 was found.

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [186-433]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KNKVRFSDVA GEEEEKQELV EIVEFLKSPA KYTKLGARIP AGVLLEGPPG TGKTLLARAV  60
   61 AGEAGVPFYS ISGSDFVEMF VGVGASRVRD LFETAKKNAP SIIFIDEIDA VGRKRGNGVS 120
  121 GGHDEREQTL NQLLVEMDGF EGDEGVIVMA ATNRSDVLDP ALLRPGRFDR KVLVGRPDVK 180
  181 GREAILKVHA KNKPLAPDVD LKKVARQTPG FVGADLENVL NEAALVAARR NKTEITASDI 240
  241 DEAEDRVI

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	72.045757
Match:	1lv7A
Description:	AAA domain of cell division protein FtsH
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
hydrolase activity	2.37825960678081	bayes_pls_golite062009
binding	1.31163400557981	bayes_pls_golite062009
catalytic activity	1.00104173493322	bayes_pls_golite062009
GTPase activity	0.69051700701659	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	0.489050800152752	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	0.485303203507997	bayes_pls_golite062009
pyrophosphatase activity	0.482413717607895	bayes_pls_golite062009
nucleoside-triphosphatase activity	0.457886666766291	bayes_pls_golite062009
purine nucleotide binding	0.428373955572763	bayes_pls_golite062009
purine ribonucleotide binding	0.424644011903671	bayes_pls_golite062009
ribonucleotide binding	0.424583288440993	bayes_pls_golite062009
nucleotide binding	0.422354428195324	bayes_pls_golite062009
peptidase activity	0.0753480171639475	bayes_pls_golite062009
ATP binding	0.04834397972685	bayes_pls_golite062009
adenyl ribonucleotide binding	0.0149501427627318	bayes_pls_golite062009
adenyl nucleotide binding	0.00365326483311895	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [434-547]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 AGPAKKDTVI SPEERKRVAY HEAGHAIVGL VLSDSRTVRK VTIVPRGRAG GYNIMLPKED  60
   61 ENIITKKQLM EQVAGLMGGR AGEEVVVGDK STGASNDFEQ ATNIARGMVT QYGM

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	6.71
Match:	2di4A
Description:	No description for 2di4A was found.

Predicted Domain #4

Region A:
Residues: [548-634]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 TDVGMTELES PSMQSPYGTK PYSEATAAKI DEAVKEILDE GHKQAVDIIK SHRETHKIIA  60
   61 EALLKYETLN EKQILSLFKT GKMPEND

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	113.0
Match:	2ce7A
Description:	EDTA treated
Matching Structure (courtesy of the PDB):

Predicted Domain #5

Region A:
Residues: [635-708]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ENEFPSESKA STYEEAKAAM EKKDQQREET ENKDDKEDIH PLPDDHKNID NIPLNPPSEK  60
   61 NESDDHSSDE NKDD

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits

Predicted functions: